Repo related to this paper (Specific small-RNA signatures in the amygdala at premotor and motor stages of Parkinson's disease revealed by deep sequencing analysis) is here: https://github.com/lpantano/small-RNA-analysis

seqbuster
=========

**Please, be aware that the user firendly interface is depecrated. SeqBsuter only keeps updated `miraligner` as an independet file. Read how to annotate miRNAs/isomiRs from fastq files here:** http://seqcluster.readthedocs.org/mirna_annotation.html

Some comparison between many tools [here](https://github.com/lpantano/mypubs/blob/master/mirna/mirannotation/stats.md). 

----
[![Project Status: Inactive - The project has reached a stable, usable state but is no longer being actively developed; support/maintenance will be provided as time allows.](http://www.repostatus.org/badges/latest/inactive.svg)](http://www.repostatus.org/#inactive)

Download
========
Click [here](https://github.com/lpantano/seqbuster/blob/miraligner/modules/miraligner/miraligner.jar?raw=true)

Cite
====
SeqBuster is a bioinformatic tool for the processing and analysis of small RNAs datasets, reveals ubiquitous miRNA modifications in human embryonic cells. Pantano L, Estivill X, Martí E. Nucleic Acids Res. 2010 Mar;38(5):e34. Epub 2009 Dec 11.

Seqbuster as published in 2010
=========

**Note:All the below doc is updated and only are here for historical reason**

[See our documentation page](https://github.com/lpantano/seqbuster/wiki/Home)

small RNA analysis of deep sequencing data. SeqBuster offers four tools to analyze all your small RNA data coming from Illumina sequencing.

* [Installation](http://github.com/lpantano/seqbuster/wiki/How-to-start-using-it)
* [adapter removal](http://github.com/lpantano/seqbuster/wiki/adrec): remove 3' adapter
* [miraligner](http://github.com/lpantano/seqbuster/wiki/miraligner): miRNA annotation using miRBase database
*  R package [isomiRs](http://github.com/lpantano/seqbuster/wiki/isomiRs) to visualize isomiRs and miRNA abundances in a group of samples (**new**)
* [seqcluster](http://github.com/lpantano/seqbuster/wiki/seqcluster) analyzes the rest of small RNAs and annotate to multiple databases in bed format (**new**)
* SeqBuster team updates periodically the tools with more information about how to be used and new applications. If you have any comment please use: [mailing-list](http://groups.google.com/group/seqbuster). Also visit our [blog](http://seqbuster.blogspot.com/) or [facebook](http://www.facebook.com/pages/SeqBuster/111689848901007) or [twitter](http://twitter.com/seqbuster) to be up-to-day of the new information added in the wiki.

The development of Seqbuster was partly funded by the EU Seventh Framework Programme [FP7/2007-2013, grant number 262055, ESGI]. http://www.esgi-infrastructure.eu/#